Workflow

Click the nodes to obtain details about each step.

QC

Trim Stats

Statistics

If the workflow has been executed in cluster/cloud, runtimes include the waiting time in the queue.

Configuration

Configuration files
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out_dir:
    '/Users/csifuentes/Documents/rnaseq-demo'
input_dir:
    fastq: '/Users/csifuentes/Documents/fastq-input/rnaseq_raw_data'
    genome_fasta: '/Users/csifuentes/Documents/fastq-input/rnaseq_raw_data/indexes/Homo_sapiens.GRCh38.dna.chromosome.19.fa'
    genome_gtf: '/Users/csifuentes/Documents/fastq-input/rnaseq_raw_data/indexes/hg38chr19.gtf'
thread_info:
    alignment: 8
    fastqc: 2
    index: 8
    trim: 8
    deeptools: 8
    pepr: 8
    homer: 8
trim:
    trimq: 20
    minlen: 30

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